2PG8 Ligand Binding Protein date Apr 09, 2007
title Crystal Structure Of R254k Mutanat Of Dpgc With Bound Substr
authors E.N.Fielding
compound source
Molecule: Dpgc
Chain: A, B, C
Engineered: Yes
Mutation: Yes
 Organism_scientific: Streptomyces Toyocaensis
Organism_taxid: 55952
Strain: Nrrl 15009
Gene: Dpgc
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: De3(Bl21)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30a
symmetry Space Group: P 21 21 2
R_factor 0.331 R_Free 0.367
crystal
cell
length a length b length c angle alpha angle beta angle gamma
139.054 155.309 169.208 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand OXY, YE1 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceSubstrate recognition and catalysis by the cofactor-independent dioxygenase DpgC., Fielding EN, Widboom PF, Bruner SD, Biochemistry. 2007 Dec 11;46(49):13994-4000. Epub 2007 Nov 16. PMID:18004875
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (201 Kb) [Save to disk]
  • Biological Unit Coordinates (2pg8.pdb1.gz) 386 Kb
  • Biological Unit Coordinates (2pg8.pdb2.gz) 195 Kb
  • LPC: Ligand-Protein Contacts for 2PG8
  • CSU: Contacts of Structural Units for 2PG8
  • Likely Quarternary Molecular Structure file(s) for 2PG8
  • Structure Factors (836 Kb)
  • Retrieve 2PG8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2PG8 from S2C, [Save to disk]
  • Re-refined 2pg8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2PG8 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 2PG8
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2PG8, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2pg8] [2pg8_B] [2pg8_C] [2pg8_A]
  • SWISS-PROT database: [Q8KLK7]
  • Domain organization of [Q8KLK7_STRTO] by SWISSPFAM
    • Other resources with information on 2PG8
  • Community annotation for 2PG8 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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